Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010859.1 Corchorus olitorius cultivar O-4 contig10891, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 6729
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33


Found at i:4367 original size:13 final size:13

Alignment explanation


    Indices: 4334--4390  Score: 68
    Period size: 12  Copynumber: 4.7  Consensus size: 13

       4324 CCCGTTGAGG

                         
       4334 AAATG-TTT-TAT
          1 AAATGTTTTATAT

              *          
       4345 AACTGTTTTATAT
          1 AAATGTTTTATAT

                 *       
       4358 AAATGCTTTATA-
          1 AAATGTTTTATAT

                         
       4370 AAATGTTTTA-AT
          1 AAATGTTTTATAT

                     
       4382 AAATGTTTT
          1 AAATGTTTT

       4391 GGGTGCATAA


Statistics
Matches: 39,  Mismatches: 4, Indels: 5
        0.81            0.08        0.10

Matches are distributed among these distances:
  11    5  0.13
  12   21  0.54
  13   13  0.33

ACGTcount: A:0.37, C:0.04, G:0.09, T:0.51


Consensus pattern (13 bp):   
AAATGTTTTATAT

Found at i:5863 original size:15 final size:15

Alignment explanation


    Indices: 5845--5895  Score: 50
    Period size: 15  Copynumber: 3.4  Consensus size: 15

       5835 CGTTTCAATC

                      *   *
       5845 TATGCCGTTGGCACG
          1 TATGCCGTTGCCACA

                 *          
       5860 TATGCTGTAT-CCACA
          1 TATGCCGT-TGCCACA

                          *
       5875 TATGCCGTTGCCACC
          1 TATGCCGTTGCCACA

                  
       5890 TATGCC
          1 TATGCC

       5896 ATACCAACCT


Statistics
Matches: 29,  Mismatches: 5, Indels: 4
        0.76            0.13        0.11

Matches are distributed among these distances:
  14    1  0.03
  15   27  0.93
  16    1  0.03

ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29


Consensus pattern (15 bp):   
TATGCCGTTGCCACA
Done.